Valdes Haydee, Pluhácková Kristýna, Pitonák Michal, Rezác Jan, Hobza Pavel
Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic and Center for Biomolecules and Complex Molecular Systems, Prague 6, Czech Republic.
Phys Chem Chem Phys. 2008 May 21;10(19):2747-57. doi: 10.1039/b719294k. Epub 2008 Mar 13.
A detailed quantum chemical study on five peptides (WG, WGG, FGG, GGF and GFA) containing the residues phenylalanyl (F), glycyl (G), tryptophyl (W) and alanyl (A) -- where F and W are of aromatic character -- is presented. When investigating isolated small peptides, the dispersion interaction is the dominant attractive force in the peptide backbone-aromatic side chain intramolecular interaction. Consequently, an accurate theoretical study of these systems requires the use of a methodology covering properly the London dispersion forces. For this reason we have assessed the performance of the MP2, SCS-MP2, MP3, TPSS-D, PBE-D, M06-2X, BH&H, TPSS, B3LYP, tight-binding DFT-D methods and ff99 empirical force field compared to CCSD(T)/complete basis set (CBS) limit benchmark data. All the DFT techniques with a '-D' symbol have been augmented by empirical dispersion energy while the M06-2X functional was parameterized to cover the London dispersion energy. For the systems here studied we have concluded that the use of the ff99 force field is not recommended mainly due to problems concerning the assignment of reliable atomic charges. Tight-binding DFT-D is efficient as a screening tool providing reliable geometries. Among the DFT functionals, the M06-2X and TPSS-D show the best performance what is explained by the fact that both procedures cover the dispersion energy. The B3LYP and TPSS functionals-not covering this energy-fail systematically. Both, electronic energies and geometries obtained by means of the wave-function theory methods compare satisfactorily with the CCSD(T)/CBS benchmark data.
本文对五种含有苯丙氨酰基(F)、甘氨酰基(G)、色氨酰基(W)和丙氨酰基(A)残基的肽(WG、WGG、FGG、GGF和GFA)进行了详细的量子化学研究,其中F和W具有芳香性。在研究孤立的小肽时,色散相互作用是肽主链-芳香侧链分子内相互作用中的主要吸引力。因此,对这些体系进行准确的理论研究需要使用一种能恰当涵盖伦敦色散力的方法。出于这个原因,我们评估了MP2、SCS-MP2、MP3、TPSS-D、PBE-D、M06-2X、BH&H、TPSS、B3LYP、紧束缚DFT-D方法和ff99经验力场与CCSD(T)/完全基组(CBS)极限基准数据相比的性能。所有带有“-D”符号的DFT技术都通过经验色散能进行了增强,而M06-2X泛函经过参数化以涵盖伦敦色散能。对于本文研究的体系,我们得出结论,不建议使用ff99力场,主要是因为在可靠原子电荷分配方面存在问题。紧束缚DFT-D作为一种筛选工具很有效,能提供可靠的几何结构。在DFT泛函中,M06-2X和TPSS-D表现最佳,这可以由这两种方法都涵盖了色散能这一事实来解释。不涵盖这种能量的B3LYP和TPSS泛函则系统性地失败。通过波函数理论方法获得的电子能量和几何结构与CCSD(T)/CBS基准数据相比都令人满意。